SNP Report

Basic Info

Name	rs11436 dbSNP Ensembl
Location	chr1:31364473 - 31364473(1)
Variant Alleles	T/C
Ancestral Allele	T
Minor Allele	C
Minor Allele Frequence	0.409944
Functional Annotation	3_prime_UTR_variant; downstream_gene_variant.
Consequence to Transcript	3_prime_UTR_variant(ENST00000344147, ENST00000373714, ENST00000546109, ENST00000615916, ENST00000616393, ENST00000616859, ENST00000618216, ENST00000627541); downstream_gene_variant(ENST00000373713, ENST00000482018, ENST00000497275, ENST00000498148)
No. of Studies	1 (Positive: 0; Negative: 1; Trend: 0)
Source	Literature
Overlap with SZ?	YES
Overlap with MDD?	NO

SNP related studies (count: 1)

Reference	Allele Change	Risk Allele	Statistical Values	Author Comments	Result Category
Iwayama, Y., 2010	A/G		allele test P-value = 0.7863, genotype test P-value = 0.9539 allele test P-value = 0.7863, genotype test P-value = 0.9539	None of the 8 SNPs showed association with bipolar disorder None of the 8 SNPs showed association with bipolar disorder	Negative

SNP related genes (count: 2)

Approved Symbol	Approved Name	Location	No. of Studies (Positive/Negative/Trend)
ZCCHC17	zinc finger, CCHC domain containing 17	1p35.2	Mapped by Literature SNP
FABP3	fatty acid binding protein 3, muscle and heart	1p33-p32	2(1/1/0)

SNPs in LD with rs11436 (count: 50) View in gBrowse (chr1:31244828..31425689 )

The LD data used here is based on HapMap rel#27. LD SNP pairs were selected with a threshold r²<=0.8.

Literature-origin SNPs (count: 0)

LD-proxies (count: 50)

rs_ID	Functional Annotation	r²[population]
rs1566963	intron_variant; non_coding_transcript_variant; upstream_gene_variant	0.911[CHB]; 1.0[JPT]
rs10914370		0.842[CHB]; 0.809[JPT]
rs3862890	intron_variant; non_coding_transcript_variant	0.81[JPT]
rs7514640	intron_variant; non_coding_transcript_variant	0.83[CHB]; 0.81[JPT]
rs3766296	intron_variant; non_coding_transcript_variant; upstream_gene_variant	0.943[CHB]; 1.0[JPT]
rs7543348	downstream_gene_variant; intron_variant; non_coding_transcript_variant	0.943[CHB]; 1.0[JPT]
rs12725881	intron_variant; non_coding_transcript_exon_variant; non_coding_transcript_variant; upstream_gene_variant	0.83[CHB]; 0.874[CHD]; 0.81[JPT]
rs2271074	downstream_gene_variant; intron_variant; non_coding_transcript_variant; upstream_gene_variant	0.83[CHB]; 0.81[JPT]
rs12135540	downstream_gene_variant; intron_variant; upstream_gene_variant	0.83[CHB]; 0.874[CHD]; 0.81[JPT]
rs6679365	intron_variant; non_coding_transcript_variant	0.943[CHB]; 1.0[CHD]; 1.0[JPT]
rs1546375	intron_variant; non_coding_transcript_exon_variant; non_coding_transcript_variant; upstream_gene_variant	0.83[CHB]; 0.866[CHD]; 0.81[JPT]
rs7515988	downstream_gene_variant	0.83[CHB]; 0.874[CHD]; 0.81[JPT]
rs10914355	intron_variant; non_coding_transcript_variant	0.943[CHB]; 0.92[CHD]; 1.0[JPT]
rs4949389	downstream_gene_variant; intron_variant; upstream_gene_variant	1.0[CHB]; 1.0[CHD]; 1.0[JPT]
rs3806255	intron_variant; non_coding_transcript_variant	0.943[CHB]; 1.0[JPT]
rs12121165		0.828[CHB]; 0.81[JPT]
rs12403136	downstream_gene_variant	0.83[CHB]; 0.874[CHD]; 0.81[JPT]
rs4949385	intron_variant; non_coding_transcript_variant	0.942[CHB]; 0.81[JPT]
rs4949387	downstream_gene_variant; intron_variant; non_coding_transcript_variant	0.943[CHB]; 1.0[JPT]
rs6425735	intron_variant; non_coding_transcript_variant	0.943[CHB]; 1.0[JPT]
rs4478858	intron_variant; non_coding_transcript_variant; upstream_gene_variant	0.842[CHB]; 0.81[JPT]
rs3737755	intron_variant; non_coding_transcript_exon_variant; non_coding_transcript_variant; upstream_gene_variant	0.83[CHB]; 0.874[CHD]; 0.81[JPT]
rs11576621	intron_variant; non_coding_transcript_variant	0.943[CHB]; 1.0[CHD]; 1.0[JPT]
rs12126725	downstream_gene_variant; intron_variant; non_coding_transcript_variant	0.943[CHB]; 1.0[CHD]; 1.0[JPT]
rs4949384	intron_variant; non_coding_transcript_variant	0.92[CHB]; 1.0[JPT]
rs1317251	intron_variant; non_coding_transcript_variant	0.842[CHB]
rs10914375	intron_variant; non_coding_transcript_variant; upstream_gene_variant	0.842[CHB]; 0.81[JPT]
rs10798842	intron_variant; non_coding_transcript_variant	0.943[CHB]; 1.0[CHD]; 1.0[JPT]
rs10798845	downstream_gene_variant; intron_variant; upstream_gene_variant	1.0[CHB]; 1.0[CHD]; 1.0[JPT]
rs1934290	intron_variant; non_coding_transcript_variant; upstream_gene_variant	0.842[CHB]; 0.81[JPT]
rs7523509	intron_variant; non_coding_transcript_variant	0.943[CHB]; 1.0[JPT]
rs11581476		0.83[CHB]; 0.874[CHD]; 0.81[JPT]
rs12129941		0.841[CHB]; 0.81[JPT]
rs4949400	intron_variant; non_coding_transcript_variant	0.842[CHB]
rs12037108	intron_variant; non_coding_transcript_variant	0.842[CHB]
rs7556340	intron_variant; non_coding_transcript_variant	0.943[CHB]; 1.0[CHD]; 1.0[JPT]
rs2275435	intron_variant; non_coding_transcript_variant	0.841[CHB]
rs10914338	downstream_gene_variant; intron_variant; non_coding_transcript_variant	0.805[CHB]
rs6679393	intron_variant; non_coding_transcript_variant; upstream_gene_variant	0.943[CHB]; 1.0[CHD]; 1.0[JPT]
rs4949204	intron_variant; non_coding_transcript_variant	0.937[CHB]; 1.0[JPT]
rs6701521	intron_variant; non_coding_transcript_variant; upstream_gene_variant	0.842[CHB]; 0.81[JPT]
rs7528066	intron_variant; non_coding_transcript_variant	0.83[CHB]; 0.81[JPT]
rs10914368	intron_variant; upstream_gene_variant	0.934[CHB]; 1.0[JPT]
rs4949205	intron_variant; non_coding_transcript_variant	0.943[CHB]; 1.0[JPT]
rs4949372	intron_variant; non_coding_transcript_variant; upstream_gene_variant	0.83[CHB]; 0.832[CHD]; 0.81[JPT]
rs1566964	intron_variant; non_coding_transcript_variant	0.943[CHB]; 1.0[JPT]
rs4949393	upstream_gene_variant	0.842[CHB]; 0.92[CHD]; 0.81[JPT]
rs1566961	intron_variant; non_coding_transcript_variant; upstream_gene_variant	0.943[CHB]; 1.0[CHD]; 1.0[JPT]
rs11582342	intron_variant; non_coding_transcript_variant	0.943[CHB]; 1.0[CHD]; 1.0[JPT]
rs2271072	downstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant	0.939[CHB]; 1.0[JPT]

Overlap with SZ from cross-disorder studies (count: 1)

Reference	Statistical Result	Description	Result Category
Iwayama, Y., 2010	allele test P-value = 0.3073, genotype test P-value = 0.4655	None of the 8 SNPs showed association with schizophrenia.	Negative

Overlap with MDD from cross-disorder studies (count: 0)